Locus 7612

Sequence ID	2L_DroMel_CAF1
Location	21,092,266 – 21,092,357
Length	91
Max. P	0.973589

overview

Window 4

Location	21,092,266 – 21,092,357
Length	91
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	77.58
Mean single sequence MFE	-22.86
Consensus MFE	-16.70
Energy contribution	-17.22
Covariance contribution	0.52
Combinations/Pair	1.22
Mean z-score	-2.09
Structure conservation index	0.73
SVM decision value	1.71
SVM RNA-class probability	0.973589
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21092266 91 + 22407834
UUCCACAAGAAUCACAUCAAGUUGUUUGCCGUUUACAUGAAAACGGCGAAUUUGAUGCAAAAUUCGAACGUGCUAAAGCGUUCGCUGUAAG-----------------------------
....(((.((((..((((((...(((((((((((......)))))))))))))))))....))))((((((......))))))..)))...----------------------------- ( -28.60)
>DroPse_CAF1 19246 91 + 1
UUCCACAAAAAUCACAUCAAAUUGGUUGCUGUUUAUAUGAAAACGGCAAAUCUAAUGCAAAUCUUGAAUGUGCUGAAGCGUUCGCUUUAAG-----------------------------
............((((((((((((((((((((((......)))))))))..))))).......))).))))).((((((....))))))..----------------------------- ( -20.31)
>DroWil_CAF1 25972 120 + 1
UUUCAUAAAAAUCACAUUAAAUUGUUUGCUGUUUAUAUGAAAACGGCAAAUCUAAUGCAAAAUUUCAACGUGCUAAAGCGUUCGCUUUAAAAAGAGACGAGACGAGUGAGCGAGAGGCGA
((((..........(((((....(((((((((((......))))))))))).)))))..............(((....((((((((((....)))).))).)))....)))))))..... ( -26.30)
>DroAna_CAF1 16506 91 + 1
UUCCAUAAGAACCACAUCAAGUUGUUUGCUGUUUAUAUGAAAACGGCAAAUCUGAUGCAAAACUUUAACGUCCUUAAGCGAUCGCUAUAAG-----------------------------
..............(((((....(((((((((((......))))))))))).)))))...............(((((((....))).))))----------------------------- ( -18.80)
>DroPer_CAF1 19225 91 + 1
UUCCACAAAAAUCACAUCAAAUUGGUUGCUGUUUAUAUGAAAACGGCAAAUCUAAUGCAAAUCUUGAAUGUGCUGAAGCGUUCGCUUUAAG-----------------------------
............((((((((((((((((((((((......)))))))))..))))).......))).))))).((((((....))))))..----------------------------- ( -20.31)
>consensus
UUCCACAAAAAUCACAUCAAAUUGUUUGCUGUUUAUAUGAAAACGGCAAAUCUAAUGCAAAACUUGAACGUGCUAAAGCGUUCGCUUUAAG_____________________________
..............(((((....(((((((((((......))))))))))).))))).......(((((((......))))))).................................... (-16.70 = -17.22 +   0.52)

alignment

secondary structure

dotplot

Window 5

Location	21,092,266 – 21,092,357
Length	91
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	77.58
Mean single sequence MFE	-22.82
Consensus MFE	-16.44
Energy contribution	-15.64
Covariance contribution	-0.80
Combinations/Pair	1.35
Mean z-score	-2.02
Structure conservation index	0.72
SVM decision value	1.53
SVM RNA-class probability	0.961983
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21092266 91 - 22407834
-----------------------------CUUACAGCGAACGCUUUAGCACGUUCGAAUUUUGCAUCAAAUUCGCCGUUUUCAUGUAAACGGCAAACAACUUGAUGUGAUUCUUGUGGAA
-----------------------------.((((((.(((((........)))))(((((..(((((((.((.(((((((......)))))))....)).)))))))))))))))))).. ( -25.90)
>DroPse_CAF1 19246 91 - 1
-----------------------------CUUAAAGCGAACGCUUCAGCACAUUCAAGAUUUGCAUUAGAUUUGCCGUUUUCAUAUAAACAGCAACCAAUUUGAUGUGAUUUUUGUGGAA
-----------------------------....((((....)))).....(...(((((.(..((((((((((((.((((......)))).)))...)))))))))..).)))))..).. ( -21.10)
>DroWil_CAF1 25972 120 - 1
UCGCCUCUCGCUCACUCGUCUCGUCUCUUUUUAAAGCGAACGCUUUAGCACGUUGAAAUUUUGCAUUAGAUUUGCCGUUUUCAUAUAAACAGCAAACAAUUUAAUGUGAUUUUUAUGAAA
.........(((....(((.(((.((........))))))))....))).(((.((((((..(((((((((((((.((((......)))).)))...)))))))))))))))).)))... ( -23.80)
>DroAna_CAF1 16506 91 - 1
-----------------------------CUUAUAGCGAUCGCUUAAGGACGUUAAAGUUUUGCAUCAGAUUUGCCGUUUUCAUAUAAACAGCAAACAACUUGAUGUGGUUCUUAUGGAA
-----------------------------((((.(((....)))))))..(((..(((..(..((((((.(((((.((((......)))).)))))....))))))..)..))))))... ( -22.20)
>DroPer_CAF1 19225 91 - 1
-----------------------------CUUAAAGCGAACGCUUCAGCACAUUCAAGAUUUGCAUUAGAUUUGCCGUUUUCAUAUAAACAGCAACCAAUUUGAUGUGAUUUUUGUGGAA
-----------------------------....((((....)))).....(...(((((.(..((((((((((((.((((......)))).)))...)))))))))..).)))))..).. ( -21.10)
>consensus
_____________________________CUUAAAGCGAACGCUUCAGCACGUUCAAGUUUUGCAUUAGAUUUGCCGUUUUCAUAUAAACAGCAAACAAUUUGAUGUGAUUUUUGUGGAA
..................................(((....)))......(((..(((..(..((((((((((((.((((......)))).)))...)))))))))..)..))))))... (-16.44 = -15.64 +  -0.80)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:41:04 2006